RnoINT0145663 @ rn6
Intron Retention
Gene
ENSRNOG00000020392 | Stxbp3
Description
syntaxin binding protein 3 [Source:RGD Symbol;Acc:619968]
Coordinates
chr2:211627363-211628497:-
Coord C1 exon
chr2:211628416-211628497
Coord A exon
chr2:211627440-211628415
Coord C2 exon
chr2:211627363-211627439
Length
976 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
CTTTTTGTTGTTGTTCTCAGTTA
3' ss Score
9.36
Exon sequences
Seq C1 exon
ATCATGCTGTTGGATGACTTCACCACCAGACTTCTGTCATCGTGCTGCAAAATGACAGACCTTCTAGAAGAGGGTGTGACAG
Seq A exon
GTAGGTACTGCTTCTCTTCAGCTGTGAGCTGTGGAAGTAAATCCAGCCTTCTCCAGATATCCTGATCACATACAGGATGGATGTTTTGATATTTATGAATACAATTACTTGTTACCTATTGCATATTCAATTTGTATTTGCTATTATAGCATGTTTTTAACACAGATTTTATATTTTTAAATTTTATCACATTTTTACTGGAGGAGGAGGGAGGGAGGGAGAGAGAGAAGATGTGCACATGTGAAAGTCACAGAACAACCTTTGGAAGTGAGTTCTGTCTGTCAGCTGTGCAGTCCTAGGGACTGAACTTAGGTCATCAGCCGGGCAGGCCTTTACTTACTGAGTTACTTCATTGGCCTCCAGACTTAGTAATTAGGCCATGGTAATCATTGTTCAAGCTTACTCGGCAATAGATAGGTATTGAGAGCATTTTCTCTTGTAGTCACCTAGACTTGCACTGTGTATGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGTGAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTCCTCTGTCCCTGTGTTTGTATTTGCTCGAGTTAGTTCGTTCCTTTCACTGTGGTGTCCAGAGCACCAGATTTAGGCTGTCAGGCTGAGTAGCAGGTACCCTCACCTGCCAAGCCAGGTCATTGACCCAGAGAATTATTTCACCTTTTAGAGTACTTTCTTTCTTCCTTACGTTTTGATTGCTTATTCTATATTCTGGCAGGCCCACCTATATAATTACTGCGTTGTCTTTTTTCTCGTAATTCTACATAAAGTCTCAGAAGATACATTTTTTATGACTTACTAATTTATCAAATGGGAAAAAAAGTATGCTCAATGTATATAAATGTATTTATTATTGTTGTAAATGGAAAATACAATGAAATTTGTTTAAAAATATTTTATTAAACTTTGGTTCCATAAATGACTTTTTGTTGTTGTTCTCAG
Seq C2 exon
TTATAGAGAATATTTATAAGAATCGTGAACCTGTCAGACAAATGAAAGCTCTTTATTTTATCTCTCCAACACCAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020392:ENSRNOT00000027666:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(4.9=100)
A:
NA
C2:
PF0099518=Sec1=FE(4.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]